killing assay analysis
17 Mai 2023
Introduction
normalized NLR count
Growth
Growth curve
Area under the curve
## `summarise()` has grouped output by 'KO'. You can override using the `.groups`
## argument.| KO | Filter_ID | AUC |
|---|---|---|
| Blue | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 7287552 |
| Blue | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 8774893 |
| Blue | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 6916298 |
| Blue | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 9284429 |
| Green | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 8466275 |
| Green | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 7940839 |
| Green | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 3866721 |
| Green | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 4584777 |
| Orange | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 11475883 |
| Orange | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 12490358 |
| Orange | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 9920774 |
| Orange | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 8832324 |
| Pos. ctrl | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 17768375 |
| Pos. ctrl | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 16501387 |
| Pos. ctrl | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 13852846 |
| Pos. ctrl | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 14042435 |
| Purple | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 8078002 |
| Purple | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 6749528 |
| Purple | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 3672978 |
| Purple | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 3306923 |
| Scr_high | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 18796406 |
| Scr_high | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 16139231 |
| Scr_high | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 15263737 |
| Scr_high | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 15461650 |
| Scr_higher | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 12283676 |
| Scr_higher | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 6165890 |
| Scr_higher | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 9565769 |
| Scr_higher | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 6764481 |
| Scr_low | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 16522798 |
| Scr_low | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 15678339 |
| Scr_low | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 12432741 |
| Scr_low | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 11630173 |
| Scr_mid | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 9797703 |
| Scr_mid | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 10124519 |
| Scr_mid | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 3829163 |
| Scr_mid | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 5022985 |
| Yellow | 20230501/MKN45/PBMCs D1/CEA-TCB/- | 5575144 |
| Yellow | 20230501/MKN45/PBMCs D2/CEA-TCB/- | 6472994 |
| Yellow | 20230501/MKN45/PBMCs D3/CEA-TCB/- | 4786186 |
| Yellow | 20230501/MKN45/PBMCs D4/CEA-TCB/- | 8071852 |
killing plots
The following analysis is plotting each sample with its corresponding control based on similar growth and seeding. The area under the curve (AUC) was calculated for each cell line and each seeding control. The difference in AUC (AUC delta) between sample and each seeding control was then calculated. The smallest AUC delta corresponds to the most similar growth and seeding. Therefore the samples where assigned to the controls based on their smallest AUC delta and graphs were plotted accordingly.
Samples only with Scr low
Blue
PBMCs D4
CEA-TCB
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
Samples only with Scr mid
Green
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
PBMCs D2
CEA-TCB
Purple
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
PBMCs D2
CEA-TCB
Orange
PBMCs D2
CEA-TCB
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Yellow
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D4
CEA-TCB
Blue
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Samples only with Scr high
Pos. ctrl
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Samples only with Scr higher
Orange
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
PBMCs D2
CEA-TCB
Green
PBMCs D2
CEA-TCB
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Purple
PBMCs D2
CEA-TCB
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Yellow
PBMCs D2
CEA-TCB
PBMCs D4
CEA-TCB
PBMCs D1
CEA-TCB
PBMCs D3
CEA-TCB
Blue
PBMCs D3
CEA-TCB
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D4
CEA-TCB
Killing plots including all Growth controls
Pos. ctrl
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Orange
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Green
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Purple
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Yellow
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Blue
PBMCs D1
CEA-TCB
PBMCs D2
CEA-TCB
PBMCs D3
CEA-TCB
PBMCs D4
CEA-TCB
Facet Grid per Gene by Donor
Blue
Green
Purple
Orange
Yellow
Blue
Pos. ctrl
Orange
Green
Purple
Yellow
Blue
[[1]] NULL
[[2]] NULL
[[3]] NULL
[[4]] NULL